Contacts of the helix formed by residues 250 - 267 (chain C) in PDB entry 2AXZ
Residue contacts within the protein are
derived with the CSU software (Sobolev V., Sorokine A.,
Prilusky J., Abola E.E. and Edelman M. (1999) Automated
analysis of interatomic contacts in proteins.
Bioinformatics, 15, 327-332). A
short description of the analytical approach
is given at the end of the page.
Note:
Non-standard 3 letter residue
codes indicate a heterogroup. To identify
and analyse, use LPC software
Legend:
Dist - nearest distance (Å) between atoms of two residues
Surf - contact surface area (Å2) between two residues
HB - hydrophilic-hydrophilic contact (hydrogen bond)
Arom - aromatic-aromatic contact
Phob - hydrophobic-hydrophobic contact
DC - hydrophobic-hydrophilic contact (destabilizing contact)
+/- - indicates presence/absence of a specific contacts
* - indicates residues forming contacts by their side chain
(including CA atoms)
Residues in contact with ASN 250 (chain C).
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Specific contacts
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Residue Dist Surf HB Arom Phob DC
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245C PHE* 3.7 11.3 + - - +
248C ASP* 3.5 11.0 - - + +
249C LYS* 1.3 75.3 - - - +
251C ILE* 1.3 77.1 + - - +
252C ASP* 2.8 46.2 + - - +
253C SER* 2.8 31.8 + - - +
254C TYR 3.6 2.3 + - - -
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Residues in contact with ILE 251 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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254B TYR* 3.9 34.8 - - + +
255B LEU* 4.0 21.5 - - + -
258B VAL* 4.3 26.0 - - + -
245C PHE* 4.6 10.0 - - + -
249C LYS 4.2 1.5 - - - +
250C ASN* 1.3 79.8 - - - +
252C ASP* 1.3 65.7 + - - +
254C TYR* 3.1 13.0 + - + +
255C LEU* 2.8 35.0 + - + +
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Residues in contact with ASP 252 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
258B VAL* 6.0 1.0 - - - +
250C ASN* 2.8 24.4 + - - +
251C ILE* 1.3 81.9 - - - +
253C SER* 1.3 62.1 + - - +
255C LEU* 3.2 20.5 + - - +
256C ASN* 2.9 31.3 + - - +
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Residues in contact with SER 253 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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241C GLN* 3.4 42.7 - - - +
244C GLN* 3.6 20.2 + - - +
245C PHE* 3.7 12.9 + - - -
248C ASP* 5.8 1.2 - - - +
250C ASN* 2.8 27.4 + - - +
252C ASP* 1.3 73.8 - - - +
254C TYR* 1.3 60.7 + - - -
256C ASN* 3.3 5.4 + - - +
257C ALA* 3.1 17.3 + - - +
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Residues in contact with TYR 254 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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251B ILE* 5.5 3.2 - - + +
255B LEU* 5.3 9.6 - - + -
242C ILE* 5.0 6.5 - - + -
245C PHE* 3.5 49.0 - + + +
250C ASN 3.6 1.0 + - - -
251C ILE* 3.1 11.8 + - + +
253C SER* 1.3 76.4 - - - +
255C LEU* 1.3 74.3 + - + +
257C ALA* 3.0 8.8 + - - +
258C VAL* 3.0 43.3 + - + +
280C LEU* 4.1 26.1 - - + +
283C ILE* 6.1 5.8 - - + -
290I THR* 4.0 15.2 + - - +
291I PRO* 3.4 32.0 - - + +
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Residues in contact with LEU 255 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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255B LEU* 3.9 33.9 - - + -
251C ILE* 2.8 22.4 + - + +
252C ASP* 3.4 24.2 - - - +
254C TYR* 1.3 80.2 - - + +
256C ASN* 1.3 61.1 + - - +
258C VAL* 3.2 10.4 + - + +
259C ASN* 2.8 29.6 + - - +
291I PRO* 6.2 1.3 - - + -
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Residues in contact with ASN 256 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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241C GLN* 3.7 29.5 + - + +
252C ASP* 2.9 20.3 + - - +
253C SER* 3.4 9.6 - - - +
255C LEU* 1.3 78.3 - - - +
257C ALA* 1.3 64.9 + - - +
259C ASN* 3.2 14.1 + - - +
260C ILE* 2.9 30.2 + - - +
262D ASN* 5.9 1.0 - - - +
266D ILE* 4.4 28.9 - - + +
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Residues in contact with ALA 257 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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238C TYR* 3.5 22.0 - - + +
241C GLN* 4.0 7.3 - - + +
242C ILE* 3.3 33.9 - - + +
253C SER 3.1 12.5 + - - +
254C TYR* 3.0 10.9 + - + +
256C ASN* 1.3 76.9 - - - +
258C VAL* 1.3 56.2 + - + +
260C ILE* 3.3 1.2 + - - +
261C ILE* 2.8 37.2 + - + +
280C LEU* 5.7 0.7 - - + -
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Residues in contact with VAL 258 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
254C TYR* 3.0 42.1 + - + +
255C LEU* 3.4 10.8 - - + +
257C ALA* 1.3 76.8 - - + +
259C ASN* 1.3 58.2 + - - +
261C ILE* 3.1 14.6 + - + +
262C ASN* 2.9 27.7 + - - +
280C LEU* 4.5 13.2 - - + -
291I PRO* 4.7 15.5 - - + -
293I LYS* 3.8 31.1 + - + +
294I GLU* 5.9 4.7 - - + -
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Residues in contact with ASN 259 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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255C LEU 2.8 17.1 + - - +
256C ASN* 3.3 19.1 - - - +
258C VAL* 1.3 74.0 - - - +
260C ILE* 1.3 63.1 + - + +
262C ASN* 3.2 9.3 - - - +
263C ILE* 3.0 28.4 + - - +
259D ASN* 3.5 32.3 + - - +
262D ASN* 4.8 13.3 - - - +
263D ILE* 4.0 11.4 - - - +
266D ILE* 6.4 1.3 - - - -
293I LYS* 5.4 0.7 - - - +
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Residues in contact with ILE 260 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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234C LEU* 3.3 38.4 - - + +
237C ASN* 3.8 15.9 - - + +
238C TYR* 3.6 33.7 - - + +
241C GLN* 4.1 9.2 - - + -
256C ASN 2.9 19.6 + - - +
257C ALA 3.6 6.1 - - - +
259C ASN* 1.3 73.1 - - - +
261C ILE* 1.3 67.5 + - - +
263C ILE* 3.1 15.6 + - - +
264C PHE* 3.3 16.3 - - + -
263D ILE* 3.4 26.7 - - + -
266D ILE* 4.6 10.1 - - + -
267D ILE* 4.7 2.0 - - + -
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Residues in contact with ILE 261 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
----------------------------------------------------------
238C TYR* 3.4 22.2 - - + -
257C ALA 2.8 24.6 + - - +
258C VAL* 3.2 15.0 - - + +
260C ILE* 1.3 76.2 - - - +
262C ASN* 1.3 62.2 + - - +
264C PHE* 3.3 20.2 + - - +
273C HIS* 3.0 24.9 - - + +
276C LEU* 3.2 33.2 - - + -
277C VAL* 3.9 25.8 - - + -
280C LEU* 3.5 31.2 - - + -
293I LYS* 5.2 3.4 - - - +
294I GLU* 5.2 1.6 - - + +
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Residues in contact with ASN 262 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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258C VAL 2.9 7.6 + - - +
259C ASN* 3.2 13.8 + - - +
261C ILE* 1.3 75.1 - - - +
263C ILE* 1.3 61.3 + - - +
265C LYS* 2.7 41.4 + - - +
266C ILE* 3.1 43.3 + - - +
273C HIS* 4.3 5.4 - - - -
259D ASN* 4.4 9.3 - - - +
293I LYS* 2.9 40.6 + - - +
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Residues in contact with ILE 263 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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234C LEU* 4.4 11.4 - - + -
259C ASN* 3.0 21.3 + - - +
260C ILE* 3.1 9.8 + - - +
262C ASN* 1.3 85.4 - - - +
264C PHE* 1.3 62.3 + - - +
266C ILE* 3.2 10.5 + - + +
267C ILE* 3.1 22.8 + - + +
234D LEU* 3.5 31.4 - - + -
259D ASN* 4.4 12.8 - - + +
260D ILE* 3.5 26.7 - - + -
263D ILE* 3.4 30.5 - - + -
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Residues in contact with PHE 264 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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231C TYR* 3.8 22.7 - + + -
234C LEU* 3.4 42.0 - - + -
235C GLU* 3.8 20.2 - - + -
238C TYR* 5.8 0.2 - - + -
260C ILE* 3.3 32.5 + - + -
261C ILE* 3.3 16.5 + - - +
262C ASN 3.0 0.4 - - - -
263C ILE* 1.3 78.6 - - - +
265C LYS* 1.3 59.0 + - - +
267C ILE* 3.3 10.3 - - + +
269C LYS* 3.0 43.6 + - + +
272C ILE* 3.6 28.9 - - + -
273C HIS* 4.1 15.9 - - + -
276C LEU* 4.9 10.8 - - + -
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Residues in contact with LYS 265 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262C ASN* 2.7 31.6 + - - +
264C PHE* 1.3 72.3 - - - +
266C ILE* 1.3 72.9 + - - +
267C ILE 3.1 1.1 + - - -
268C GLY* 3.2 10.9 + - - -
269C LYS 4.9 0.2 - - - +
270C GLU* 3.0 30.3 - - - +
273C HIS* 3.3 39.7 + - + +
293I LYS* 5.8 2.2 - - - +
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Residues in contact with ILE 266 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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262C ASN* 3.1 39.3 + - - +
263C ILE* 3.6 19.5 - - + +
265C LYS* 1.3 86.7 - - - +
267C ILE* 1.3 60.4 + - + +
268C GLY 3.4 0.7 + - - -
237D ASN* 3.0 16.2 + - - +
241D GLN* 4.2 19.7 - - + +
256D ASN* 4.3 30.3 - - + +
259D ASN* 5.2 4.9 - - + +
260D ILE* 4.6 12.6 - - + -
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Residues in contact with ILE 267 (chain C).
Click here for Legend to table.
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Specific contacts
---------------------------
Residue Dist Surf HB Arom Phob DC
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231C TYR* 4.3 9.9 - - + -
234C LEU* 4.8 2.2 - - + -
263C ILE* 3.1 20.2 + - + +
264C PHE* 3.3 20.2 - - + +
266C ILE* 1.3 78.6 - - - +
268C GLY* 1.3 57.3 + - - +
269C LYS* 3.6 20.5 - - + +
221D LYS* 4.8 8.3 - - - -
233D ASP* 3.8 26.8 - - - +
234D LEU* 3.8 32.1 - - + -
237D ASN* 3.0 39.9 - - + +
260D ILE* 4.2 7.9 - - + -
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A short description of the
analytical approach
The contact analysis used in this page
is based upon the approach
developed in:
Sobolev V., Wade R.C., Vriend G.
and Edelman M. PROTEINS (1996)
25, 120-129.
Contact legitimacy depends on the hydrophobic-hydrophilic
properties of the contacting atoms. In order to
define it, for each inter-atomic contact,
eight atom classes have been introduced:
I Hydrophilic - N and O that can donate and accept hydrogen bonds
(e.g., oxygen of hydroxyl group of Ser. or Thr)
II Acceptor - N or O that can only accept a hydrogen bond
III Donor - N that can only donate a hydrogen bond
IV Hydrophobic - Cl, Br, I and all C atoms that are not in
aromatic rings and do not have a covalent bond to
a N or O atom
V Aromatic - C in aromatic rings irrespective of any other
bonds formed by the atom
VI Neutral - C atoms that have a covalent bond to at least one
atom of class I or two or more atoms from class II
or III; atoms; S, F, P, and metal atoms in all cases
VII Neutral-donor - C atoms that have a covalent bond with only one
atom of class III
VIII Neutral-acceptor - C atoms that have a covalent bond with only
one atom of class II
For each pair of contacts the state of legitimacy
is shown below:
Legend:
+, legitimate
-, illegitimate
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Atomic class I II III IV V VI VII VIII
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I (Hydrophilic) + + + - + + + +
II (Acceptor) + - + - + + + -
III (Donor) + + - - + + - +
IV (Hydrophobic) - - - + + + + +
V (Aromatic) + + + + + + + +
VI (Neutral) + + + + + + + +
VII (Neutral-donor) + + - + + + - +
VIII (Neutral-acceptor) + - + + + + + -
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Warning!
Atom classes for heterogroups are automatically
assigned based on the atomic coordinates. However, in
three cases (see below) the automatic assignment
is currently ambiguous. In these
cases, the user is advised to manually analyse
the full list of contacts using
LPC software.
1. Carbon atoms belonging to a 4-, 5- or 6-member ring are
considered "aromatic" (Class V) if the ring is approximately
planar, and "hydrophobic" (Class IV) or "neutral" (Classes
VI, VII, VIII) if the ring is non-planar.
2. The oxygen atom of a carbonyl or hydroxy group is considered
"hydroxy" (Class I) if the CO bond is longer than 1.29 Å, and
"carbonyl" (Class II) if shorter.
3. All nitrogen atoms are considered "hydrophilic" (Class I).
Please E-mail any
questions and/or suggestions concerning this page to
Vladimir.Sobolev@weizmann.ac.il